MEDICAL UNIVERSITY OF BIALYSTOK DEPARTMENT OF MICROBIOLOGY Mickiewicza 2 C, BIALYSTOK 15-222 tel./fax +48 (85) 748 5562 Course: Microbiology Program of classes: 2017 / 2018 Winter/Summer semester - 15 weeks [46 didactic hours (labs) + 4 tests (4 didactic hours); labs duration 2.30 clock hours] Location: Classroom at the Department of Microbiology (Collegium Universum, Mickiewicza 2c Street) Wednesday: 8.00 10.30 (groups 1 and 2) 11.00 13.30 (groups 3 and 4) Lab I. Study of the microbial cell morphology under the light microscope. Tutorial : 1. Organizational matters. 2. Safety precautions in microbiology laboratory. 3. Microscopy and various types of microscopes. 4. Bacterial cell morphology and bacterial staining methods (Gram staining method). Date 10 & 11 January 2018 Evaluation of microbial cell morphology under the light microscope and practice of Gram staining technique. Medical Microbiology Murray PR: 5 th edition: Chapter 3 Bacterial morphology (pp.11-12) and Chapter 16 6 th edition: Chapter 3 Bacterial classification (pp. 9-10) and Chapter 14 II. Bacteria staining techniques and methods for isolation and cultivation of aerobic bacteria. Topics from the 1 st Lab and Lecture and the related book chapters ( Medical Microbiology Murray PR, 5 th ed.: Chapter 1 Introduction to Medical Microbiology and 2 Bacterial classification ) 17 & 18 January 2018 Tutorial: 1. Division and application of microbial staining methods: - simple vs. diffrential staining; positive vs negative techniques - special staining techniques (Neisser s, Dorner s, Maneval s, Ziehl-Neelsen stain, etc.) 2. Microbiological media and methods for isolation and cultivation of aerobic bacteria. - liquid and solid media, simple and enriched media, differential and selective media - microbial cultures (mixed vs. pure) and growth conditions - microbial colony and cultural appearances 1. Microscopic observation of bacterial capsules, spores and granules. 2. Isolation of microorganisms from clinical specimens on solid media (practice of the quadrant streak method). 3. Gram staining and microscopic observation of preparations from clinical specimens. 4. Recognition of microorganisms growing on solid media. Medical Microbiology Murray PR, 6 th ed.: Chapter 15 In vitro culture III. Bacteria identification methods, cultivation of anaerobic and microaerophilic bacteria. Topics from the Lab 2 and Lectures 2-3 and related book chapters: ( Medical Microbiology Murray PR: Chapters 3-5 (5 th ed.): Bacterial morphology, Bacterial 24 & 25 January 2018
metabolism and growth and Bacterial genetics or Chapters 3-4 (6 th ed.)) Tutorial: 1. Classification and characteristics of anaerobic and microaerophilic bacteria. 2. Media and methods for isolation and cultivation of anaerobic and microaerophilic bacteria. 1. Bacterial growth in liquid media. 2. Identification of microorganisms present in clinical samples on selective and differential media (a completion of the experiment from the previous lab). 3. Macroscopic observation (colony morphology) of bacterial cultures, including anaerobic and microaerophilic bacteria. 4. Gram staining of anaerobic and microaerophilic bacteria. Medical Microbiology Murray PR, Chapter 4 Bacterial metabolism and growth (5 th ed.) or Chapter 3 (6 th ed.) IV. Gram-positive bacteria TEST 1: General microbiology (Covers topics from Labs/Lectures 1-3 and the related book chapters) Time: 21 February 2018 (Wednesday) at 14:45. (Kilinskiego 1 Street) 21 February 2018 Topics from the Lecture 3 and the book chapters listed below. Tutorial: Classifications and characteristics of Gram+ bacteria (Staphylococcus, Streptococcus, Enterococcus, Bacillus, Corynebacterium, Listeria, etc.). Physiological (biochemical) characteristics, culture and identification methods. Medical Microbiology Murray PR, 6 th ed.: Chapters 21-27; Chapter 18 (particularly paragraphs about Gram+ bacteria); Chapter19 (Tables 19.2, 19.3 parts about Gram+ bacteria). Medical Microbiology Murray PR, 5 th ed.: Chapters 22-28; Chapter 19 (particularly paragraphs about Gram+ bacteria). Lecture 4 V. Gram-negative bacteria 28 February 2018 Topics from the Lecture/Lab 4 and the book chapters listed below. Tutorial: Classifications and characteristics of Gram- bacteria (Enterobacteriaceae, Pseudomonas, Neisseria, Haemophilus, Bordetella, etc.). Practical part : Physiological (biochemical) characteristics, culture and identification methods. Medical Microbiology Murray PR, 6 th ed.: Chapters 29-38; Chapter 18 (particularly paragraphs about Gram- bacteria); Chapter19 (Tables 19.2, 19.3 parts about Gram- bacteria). Medical Microbiology Murray PR, 5 th ed.: Chapters 30-39; Chapter 19 (particularly paragraphs about Gram- bacteria). Lecture 5
VI. Fungi 07 March 2018 Topics from the Lecture/Lab 5, and the book chapters listed below. Tutorial: Fungal classification, structure and reproductive characteristics. Medical important Fungi and classification of human mycoses. Mycotoxins and mycotoxicoses. 1. Culture and identification of yeasts: Candida, Cryptococcus, Saccharomyces and other yeasts. 2. Culture and identification of moulds: Aspergillus, Penicillium and other moulds. Medical Microbiology Murray PR, 6 th ed.: Chapter 5; Chapters 68-77 (except 70). Medical Microbiology Murray PR, 5 th ed.: Chapter 7; Chapter 69-78 (except 70). Lecture 7 TEST 2: Classification and characteristics of medical important bacteria and fungi (covers topics from Lectures 4-7 and Labs 4-6, and the related book chapters) VII. Antimicrobial susceptibility testing (AST) Time: 14 March 2018 (Wednesday) at 19:20 (7:20 pm) (Branicki Palace, Jana Kilinskiego 1 street) 14 March 2018 Topics from the Lecture/Lab 6 and the book chapters listed below. Tutorial: Microbial growth control and measures: chemotherapy and chemoprophylaxis. Empiric chemotherapy. Antibacterial agents. Practical part : Control of microbial growth in human diseases: 1. Susceptibility test methods: 1.1. Dilution (MIC, MBC) and disk diffusion methods 1.2. Antibiotic gradient diffusion method (Etest) 1.3. Breakpoint susceptibility tests 2. Interpretation and reporting of results Medical Microbiology Murray PR, 6 th ed.: Chapter 20. Medical Microbiology Murray PR, 5 th ed.: Chapter 7; Chapter 69-78 (except 70). Lecture 8 VIII. Resistance to antimicrobial agents 21 March 2018 Topics from the Lecture/Lab 7 and the book chapters listed below. Tutorial: Review of antibacterial chemotherapeutics: mechanisms of action, spectrum and activity. Bacterial mechanisms of resistance to antibacterial agents. 1.Methods of drug resistance measurement and interpretation of the results 1.1. β-lactamases and methods of study: ESBL, AmpC, KPC and others, 1.2. Study methods of resistance to vancomycin among staphylococci (VISA, VRSA) and enterococci (VRE), 1.3. MLS B (macrolide-lincomycin-streptogramin B) type of resistance, 1.4. HLAR (high level aminoglycoside resistant) type of resistance among enterococci. 2. Susceptibility test methods: 2.1. Fastidious bacteria, 2.2. Special phenotypic methods for detecting antibacterial resistance 2.3. Assessment of resistance of Staphylococcus to methicillin (MRSA, MRCNS) 2.4. Assessment of resistance to penicillin or/and ampicillin among Streptococcus pneumoniae (NSSP; PISP; PRSP), Haemophilus spp., Neisseria spp., Moraxella catarrhalis and others
3. Alert pathogens Medical Microbiology Murray PR, 6 th ed. Paragraphs Treatment, prevention, and control from chapters in Section 5 (Bacteriology); Chapter 70. Medical Microbiology Murray PR, 5 th ed. Paragraphs Treatment, prevention, and control from chapters in Section IV (Bacteriology); Chapter 70. Lecture 9 IX. Sterilization, disinfection and antisepsis 28 March 2018 Topics from the Lecture/Lab 8 and the book chapters listed below. Tutorial and Control of microbial growth and measures : 1. Physical agents of disinfection and sterilization 2. Chemical agents of disinfection and sterilization 3. Monitoring and control of sterilization process 4. Sterilants and levels of disinfectants 5. Infection control epidemiology (hospital infections) and clinical microbiology 5.1. Microbiologic control of air and surfaces 5.2. Decontaminantion 5.3. Aseptic and antiseptic procedures 5.3.1. Antiseptic agents 5.4. Hand washing Medical Microbiology Murray PR, 6 th ed.: Chapter 8. Medical Microbiology Murray PR, 5 th ed.: Chapter 10. TEST 3: Antimicrobial therapy (antibacterial, antifungal and antiviral) and microbial growth control (disinfection, sterilization, decontamination, antisepsis) (covers topics from Lectures 8-9 and Labs 7-9 and the related book chapters) X. Diagnosis of infectious diseases Time: 18 April 2018 (Wednesday) at 14:00 (2:00pm) (Branicki Palace, Jana Kilinskiego 1 street) 11 April 2018 Topics from the Lecture 10 and the book chapters listed below. Tutorial and 1. Microbiology specimen collection and transport. 2. Diagnosis of infectious diseases (culture methods, serologic and molecular tests). 3. Diagnosis of viral infections. 4. Cooperation between physicians and microbiologist. Medical Microbiology Murray PR, 6 th ed.: Chapters 14-17, 19. Medical Microbiology Murray PR, 5 th ed.: Chapters 16-18, 21. XI. Urinary and gastrointestinal tract infections 18 April 2018 Topics from the Lab 10 and the book chapters listed below. Tutorial and 1. Urinary tract infections (UTI) 1.1. Characteristics of uropathogens: Escherichia coli and some other Gramnegative bacilli, staphylococci, enterococci and Candida spp. 1.2. Microbiological and immunological methods to diagnosis of UTI 2. Causative agents pathogenesis and immunodiagnosis of sexual transmitted diseases \ (STD) and congenital perinatal infections 3.1. Non-specific and specific tests for diagnosis of Treponema palladium infection (syphilis). 3. Gastrointestinal tract infections (GTI) : 3.1. Main microbial pathogens, pathogenesis and immunity: Escherichia coli,
Salmonella, Shigella, Yersinia, Campylobacter, Helicobacter pylori, Clostridium difficile, Listeria monocytogenes 3.2. Microbiological, immunological and molecular methods to diagnosis of GTI pathogen, antigen and /or toxin detection in stool specimens serology Medical Microbiology Murray PR, 6 th ed. Chapters about the pathogens listed in the Table 47.2 - Sections: Gastrointestinal tract infections, Urinary tract infections infections, and Genital infections (Chapter 47). Medical Microbiology Murray PR, 5 th ed.. Chapters about the pathogens listed in the Table 48.2 - Sections: Gastrointestinal tract infections and Urinary tract infections infections, and Genital infections (Chapter 48). XII. Respiratory tract and central nervous system infections 25 April 2018 Topics from the Lab 11 and the book chapters listed below. Tutorial: Microbial agents (bacteria, viruses and fungi) and pathogenesis of meningitis. Respiratory tract infections (RTI): characteristics of some pathogens of upper (URTI) and lower respiratory tract infections (LRTI). Community and hospital LRTI. Immunodiagnostic of infectious diseases. 1. Laboratory diagnosis of purulent and aseptic meningitis Microscopy and culture of cerebrospinal fluid (CSF) Specific antigen or antibody detection in CSF or and serum Nucleic acid amplification assays 2. Microbiological and immunological methods to diagnosis of RTI Cultures and typical microbial agents Streptococcus pneumoniae Haemophilus influenzae and others Pathogens and diagnosis of atypical pneumonia : Viruses : Influenza A virus, RSV, Parainfluenzavirus Bacteria : Chlamydia, Chlamydophila, Rickettsia, Anaplasma, Coxiella, Mycosplasma, Legionella Medical Microbiology Murray PR, 6 th ed. Chapters about the pathogens listed in the Table 47.2 - Sections: Respiratory tract infections and Central nervous system infections (Chapter 47). Medical Microbiology Murray PR, 5 th ed.. Chapters about the pathogens listed in the Table 48.2 - Sections: Sections: Respiratory tract infections and Central nervous system infections (Chapter 48). XIII. Bloodstream, skin and soft-tissue infections; hospital infections 09 May 2018 Topics from the Lab 12 and the book chapters listed below. Tutorial : Skin and soft tissue infections. Bloodstream infections: sepsis, septic and toxic shocks, endocarditis infectiosa and others. Hospital infections Major agents in blood and hospital infections and diagnostic methods: classic (culture) and modern methods for detection of antigens and/or nucleic acids for diagnosis of infectious diseases and for epidemiological analysis. Medical Microbiology Murray PR, 6 th ed. Chapters about the pathogens listed in the Table 47.2 - Sections: Cardiovascular infections, Sepsis, Skin and soft-tissue infections, and Intraabdominal infections (Chapter 47). Medical Microbiology Murray PR, 5 th ed. Chapters about the pathogens listed in the Table 47.2 - Sections: Cardiovascular infections, Sepsis, Skin and soft-tissue infections, and Intraabdominal infections (Chapter 47). TEST 4: Clinical microbiology (covers topics from Labs 10-13 and the related book chapters) Time: 9 May 2018 (Wednesday) at 19:00 (7:00pm)
XIV. Practical exam (Branicki Palace, Jana Kilinskiego 1 street) Course: Microbiology Program of lectures: 2017 / 2018 Winter/Summer semester (20 hours, 10 weeks, lecture duration - 1.30 clock hours) Winter semester: Lectures 1-4 (Kilinskiego 1 Street) Time: Tuesday, 10.30 12.00 Lecture Date 1. Introduction to medical microbiology. Classifications and characteristics of cellular 9 January 2018 microorganisms (bacteria, fungi, protists) and acellular microorganisms viruses, virus-like organisms (viroids) and prions. Prokaryotic and eukaryotic microorganisms. 2. Bacterial cell structures and functions. 16 January 2018 3. Bacterial metabolism and genetics. 23 January 2018 4. Introduction to mechanisms of bacterial pathogenesis: colonization, adhesion, invasion and inflammatory response. Bacterial toxins: exotoxins, endotoxins, and other virulence factors. Classification and characterization of Gram-positive bacteria. Summer semester: Lectures 5-10 (Kilinskiego 1 Street) Time: Monday, 10.00 11.30 Lecture Date 5. Classification and characterization of Gram-negative bacteria. 19 February 2018 6. Classification and characterization of anaerobic and atypical bacteria. 26 February 2018 7. Fungal classification, structure and reproductive characteristics. Medical important Fungi and classification of human mycoses. Mycotoxins and mycotoxicosis. 8. Antimicrobial chemotherapy: mains groups of antibacterial drugs: mechanisms of action and spectrum. Mechanisms of resistance to antibacterial agents: emergence and spread of antibiotic resistance (alert, multidrug resistant pathogens). Part 1. 9. Antimicrobial chemotherapy: mains groups of antibacterial and antifungal drugs: mechanisms of action and spectrum. Mechanisms of resistance to antimicrobial agents: emergence and spread of antibiotic resistance (alert, multidrug resistant pathogens). Part 2. 10. Medical important DNA and RNA viruses: classification and characteristics. Viral immunopathogenesis and epidemiology. Interferons. HIV and AIDS. Antiviral drugs: mechanisms of action and spectrum. Oncogenic viruses. 5 March 2018 12 March 2018 19 March 2018 26 March 2018 Consultation hours: Time: Wednesday 14.00-15.00 Place: Department of Microbiology The course coordinator: Krzysztof Fiedoruk, MSC, PhD email: krzysztof.fiedoruk@umb.edu.pl